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Single-cell and spatial transcriptomics Sign in to save
Papers per year
Papers 306
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2D, or not 2D? Investigating Vertical Signal Integrity of Tissue Slices2025 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Sebastian Tiesmeyer, Niklas Müller‐Bötticher, Sergio Marco Salas, Paul Kießling, Paul M. Horn, Adrien Guillot, +7 more
9citations -
CrossTalkeR: Analysis and Visualisation of Ligand Receptor Networks2021 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
James Shiniti Nagai, Nils B. Leimkühler, Michael T. Schaub, Rebekka K. Schneider, Ivan G. Costa
9citations -
PHLOWER leverages single-cell multimodal data to infer complex, multi-branching cell differentiation trajectories2025 Nature Methods article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Mingbo Cheng, Jitske Jansen, Katharina C. Reimer, Vincent P. Grande, James Shiniti Nagai, Zhijian Li, +6 more
9citations -
Multi-omic analyses in immune cell development with lessons learned from T cell development2023 Frontiers in Cell and Developmental Biology article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Martijn Cordes, Karin Pike‐Overzet, Erik B. van den Akker, Frank J. T. Staal, Kirsten Canté-Barrett
9citations -
SCHNEL: scalable clustering of high dimensional single-cell data2020 Bioinformatics article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Tamim Abdelaal, Paul de Raadt, Boudewijn P. F. Lelieveldt, Marcel J. T. Reinders, Ahmed Essam Mahfouz
9citations -
Detection of PatIent-Level distances from single cell genomics and pathomics data with Optimal Transport (PILOT)2022 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Mehdi Joodaki, Mina Shaigan, Roman David Bülow, Christoph Kuppe, David Laurin Hölscher, Mingbo Cheng, +9 more
8citations -
A cross-species spatial transcriptomic atlas of the human and non-human primate basal ganglia2025 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Madeleine N. Hewitt, Meghan A. Turner, Nelson Johansen, Delissa McMillen, Shu Dan, Mike DeBerardine, +46 more
8citations -
An imaging mass cytometry immunophenotyping panel for non-human primate tissues2022 Frontiers in Immunology article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Paula Niewold, Marieke E. Ijsselsteijn, Frank A. W. Verreck, Tom H. M. Ottenhoff, Simone A. Joosten
7citations -
Mapping T cell dynamics to molecular profiles through behavior-guided transcriptomics2025 Nature Protocols article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Amber K. L. Wezenaar, Farid Keramati, M Hernandez-Roca, Péter Brázda, Mario Barrera Román, Astrid Cleven, +12 more
7citations -
SpaGE: Spatial Gene Enhancement using scRNA-seq2020 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access cited by 4 patents
Tamim Abdelaal, Soufiane M. C. Mourragui, Ahmed Essam Mahfouz, Marcel J. T. Reinders
7citations -
Single-cell reference mapping to construct and extend cell-type hierarchies2022 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Lieke Michielsen, Mohammad Lotfollahi, Daniel C. Strobl, Lisa Sikkema, Marcel J. T. Reinders, Fabian Joachim Theis, +1 more
7citations -
GraphComm predicts cell cell communication using a graph based deep learning method in single cell RNA sequencing data2025 Scientific Reports article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Emily So, Sikander Hayat, Sisira Kadambat Nair, Bo Wang, Benjamin Haibe‐Kains
6citations -
scTopoGAN: unsupervised manifold alignment of single-cell data2023 Bioinformatics Advances article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Akash Kumar Singh, Kirti Biharie, Marcel J. T. Reinders, Ahmed Essam Mahfouz, Tamim Abdelaal
6citations -
Single cell, whole embryo phenotyping of pleiotropic disorders of mammalian development2022 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Xingfan Huang, Jana Henck, Chengxiang Qiu, Varun K. A. Sreenivasan, Saranya Balachandran, Rose Yinghan Behncke, +27 more
5citations -
A comprehensive mouse kidney atlas enables rare cell population characterization and robust marker discovery2022 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Claudio Novella-Rausell, Magda Grudniewska, Dorien J.M. Peters, Ahmed Essam Mahfouz
5citations
Most active Aachen authors
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Ahmed Essam Mahfouz 8,589 citations overall60 papers
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Ivan G. Costa 12,219 citations overall57 papers
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Boudewijn P. F. Lelieveldt 16,420 citations overall34 papers
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Rafael Kramann 16,535 citations overall30 papers
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Marcel J. T. Reinders 23,761 citations overall28 papers
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Christoph Kuppe 6,383 citations overall25 papers
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Sikander Hayat 6,065 citations overall21 papers
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Lieke Michielsen 998 citations overall21 papers
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Tamim Abdelaal 2,016 citations overall19 papers
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Rebekka K. Schneider 12,926 citations overall18 papers
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James Shiniti Nagai 2,988 citations overall17 papers
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Noel F.C.C. de Miranda 9,654 citations overall15 papers
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Ronghui Li 4,263 citations overall14 papers
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Marieke E. Ijsselsteijn 3,718 citations overall13 papers
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Mingbo Cheng 1,403 citations overall13 papers